v0.9.0

This release includes:

• Upgrade to TreeScaper v1.2.1
  • This includes the following updates to the tool interface:
    • The "Bipartition" output type for "-trees" to exit early after producing bipartition matrices.
    • The "-s" and "-c" flags for setting seed and scalar values for the bitstring hashing function.
    • A "-dfm" option to specify whether to output the distance matrix as a matrix or a list.
    • Fix a bug where the bipartition matrix output data wasn't populated for the "Covariance" output option.
• Documentation and run.sh modifications to allow SFTP uploads to CloudForest Galaxy instance. This should only be used for non-public instances as the SFTP infrastructure is not secured.
• Additional documentation updates

v0.8.0

This release includes the following changes:

• Added features to the run.sh (renamed from run_it.sh) script.
  • User specifies image tag and container name.
  • User may specify a Docker volume for data persistence.
  • User is prompted to confirm that existing images and containers may be deleted. This step can be overridden with -d.
  • No longer copies visualization code from ../CloudforestVisualization.
• New visualization code with bug fixes, and equal-scale axes for NLDR plots.
• "Collection Operation" tools included in the Galaxy interface.
• New custom concatenate tool included under "CloudForest Utilities" section.
• TreeScaper binary mode changed to executable.
• Maintainer updated.